← graph

research-olfactory-receptor

Research: olfactory receptor genes in subtelomeric PHRs

Metadata

Statusdone
Assignedagent-39
Agent identity3184716484e6f0ea08bb13539daf07686ee79d440505f1fdf2de0357707034c3
Created2026-03-31T22:27:16.322721302+00:00
Started2026-03-31T22:28:13.538361796+00:00
Completed2026-03-31T22:31:33.648480008+00:00
Tagsresearch,fan-out, eval-scheduled
Eval score0.78
└ blocking impact0.90
└ completeness0.90
└ coordination overhead0.72
└ correctness0.76
└ downstream usability0.65
└ efficiency0.82
└ intent fidelity0.86
└ style adherence0.82

Description

Goal

Investigate the olfactory receptor gene enrichment in subtelomeric PHRs.

Context

4 out of 22 query genes are olfactory receptor genes. GO terms:

  • Olfactory receptor activity (MF, p=8.2e-3)
  • Detection of chemical stimulus involved in sensory perception of smell (BP, p=0.014)
  • Sensory perception of smell (BP, p=0.016)

Angela's original 1Mb GSEA found massive OR enrichment (146-fold, z=18.0). Our PHR-only analysis still finds it but much more modestly — suggesting OR genes are near PHRs but many are outside the actual PHR boundaries.

Questions to answer

  1. Which 4 OR genes? Identify them from the enrichment results or gene list files.
  2. Which chromosomes/arms are they on? Cross-reference with chm13.phrs.no_acro.bed to find their genomic locations.
  3. OR gene clusters and subtelomeric positioning: OR genes are known to cluster in subtelomeric regions across many chromosomes. Is this a well-known phenomenon? What's the evolutionary explanation?
  4. Are these OR4F family members? Andrea's report found OR4F family in 7 Leiden communities. Are our 4 genes part of this family?
  5. Comparison to Angela's 146-fold enrichment: Why did the signal shrink so dramatically from 1Mb window to PHR-only? What fraction of subtelomeric OR genes are actually WITHIN vs ADJACENT to PHRs?

Output

Log gene identities, chromosomal locations, and a 2-paragraph interpretation covering OR subtelomeric biology and relevance to the PHR paper.

Validation

  • All 4 OR genes identified by name and chromosomal location
  • Connection to OR4F family assessed
  • Explanation of 146-fold → modest enrichment drop provided

Depends on

Required by

Log